Hi Jimmy I didn't realize it was the InteractParser option (versus xinteract), my mistake.
Thanks for the help! Brian On Thu, Jul 17, 2014 at 6:26 PM, Jimmy Eng <[email protected]> wrote: > Brian, > > That "-PREC" command line option in "xinteract" will invoke the "-I" > option in "InteractParser" to report the precursor intensity. "xinteract" > is a wrapper that runs many tools, including "InteractParser" that Jason > referred to. Hope this makes sense. > > - Jimmy > > > On Thu, Jul 17, 2014 at 3:19 PM, Brian Hampton <[email protected]> > wrote: > >> Thanks Jason, >> >> I decided to run xinteract without any arguments so it would list the >> options. Turns out to get intensity values listed in the pepxml file the >> option is -PREC. When I run xinteract without any arguments and pipe that >> into grep searching for intensity I get the following: >> >> root@bluewhale:/usr/local/tpp/bin# ./xinteract |grep intensity >> -PREC record precursor intensity in pepXML >> -i also export intensities and intensity >> based ratio >> >> The second line with the -i is listed as an option for Xpress. I didn't >> see any options for intensity via -l. >> >> >> Cheers, >> Brian >> >> >> On Thu, Jul 17, 2014 at 12:18 PM, Jason Winget <[email protected]> wrote: >> >>> Hi Brian, >>> You can get the precursor intensities in pepXML files by adding the -I >>> flag to your InteractParser call >>> >>> -- >>> You received this message because you are subscribed to the Google >>> Groups "spctools-discuss" group. >>> To unsubscribe from this group and stop receiving emails from it, send >>> an email to [email protected]. >>> To post to this group, send email to [email protected]. >>> Visit this group at http://groups.google.com/group/spctools-discuss. >>> For more options, visit https://groups.google.com/d/optout. >>> >> >> -- >> You received this message because you are subscribed to the Google Groups >> "spctools-discuss" group. >> To unsubscribe from this group and stop receiving emails from it, send an >> email to [email protected]. >> To post to this group, send email to [email protected]. >> Visit this group at http://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/d/optout. >> > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To post to this group, send email to [email protected]. > Visit this group at http://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
